miRNA display CGI


Results 1 - 20 of 25 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
30530 3' -55.3 NC_006548.1 + 7832 0.66 0.66409
Target:  5'- uGCAACGAGaucGUCAUCaucUUCGCUGAu -3'
miRNA:   3'- gCGUUGCUC---CAGUGGcucAAGCGGCU- -5'
30530 3' -55.3 NC_006548.1 + 8206 0.66 0.66409
Target:  5'- aGCAcagugcCGAGGUCAUggCGcAGUUCGgCGAc -3'
miRNA:   3'- gCGUu-----GCUCCAGUG--GC-UCAAGCgGCU- -5'
30530 3' -55.3 NC_006548.1 + 26038 0.66 0.652943
Target:  5'- gGCGgacAUGAGGUCuCCGGGcaagCGCuCGAu -3'
miRNA:   3'- gCGU---UGCUCCAGuGGCUCaa--GCG-GCU- -5'
30530 3' -55.3 NC_006548.1 + 35883 0.66 0.6306
Target:  5'- uGUGAUGGGGUCAUgccagacgacaaCGAacugGUUCGCCGu -3'
miRNA:   3'- gCGUUGCUCCAGUG------------GCU----CAAGCGGCu -5'
30530 3' -55.3 NC_006548.1 + 21026 0.66 0.619426
Target:  5'- aGCuc--AGGUCGCCGccgUCGCCGGa -3'
miRNA:   3'- gCGuugcUCCAGUGGCucaAGCGGCU- -5'
30530 3' -55.3 NC_006548.1 + 26999 0.66 0.608263
Target:  5'- aGCAGCG---UCGgCGAGUcCGCCGAu -3'
miRNA:   3'- gCGUUGCuccAGUgGCUCAaGCGGCU- -5'
30530 3' -55.3 NC_006548.1 + 20281 0.67 0.58601
Target:  5'- gGCGGCacGG-CACCGAGgaaGCCGAu -3'
miRNA:   3'- gCGUUGcuCCaGUGGCUCaagCGGCU- -5'
30530 3' -55.3 NC_006548.1 + 23594 0.67 0.574938
Target:  5'- cCGCcuGGCGGGGUCAgCGGGUcaUCcggcCCGAg -3'
miRNA:   3'- -GCG--UUGCUCCAGUgGCUCA--AGc---GGCU- -5'
30530 3' -55.3 NC_006548.1 + 14468 0.67 0.563915
Target:  5'- aCGCAGCGAGG-CGCUGA---CGgCGAu -3'
miRNA:   3'- -GCGUUGCUCCaGUGGCUcaaGCgGCU- -5'
30530 3' -55.3 NC_006548.1 + 23263 0.67 0.552949
Target:  5'- aCGCAGCaAGG-CAUCGAgcaGUUCGCUGu -3'
miRNA:   3'- -GCGUUGcUCCaGUGGCU---CAAGCGGCu -5'
30530 3' -55.3 NC_006548.1 + 32291 0.67 0.540962
Target:  5'- -uCGACcAGGUCggacuggugaacuGCCGAGUaCGCCGAg -3'
miRNA:   3'- gcGUUGcUCCAG-------------UGGCUCAaGCGGCU- -5'
30530 3' -55.3 NC_006548.1 + 35309 0.68 0.531219
Target:  5'- cCGCcaguCGAGGauUCACCGguugguccGGggCGCCGAa -3'
miRNA:   3'- -GCGuu--GCUCC--AGUGGC--------UCaaGCGGCU- -5'
30530 3' -55.3 NC_006548.1 + 20289 0.68 0.509806
Target:  5'- uGaCGGCGcccuGGcCAUCGAGUUCGCgGAa -3'
miRNA:   3'- gC-GUUGCu---CCaGUGGCUCAAGCGgCU- -5'
30530 3' -55.3 NC_006548.1 + 19917 0.68 0.509806
Target:  5'- uCGCucuCGAuGGUCGCCcggugGAGUUCaCCGAg -3'
miRNA:   3'- -GCGuu-GCU-CCAGUGG-----CUCAAGcGGCU- -5'
30530 3' -55.3 NC_006548.1 + 22768 0.69 0.478394
Target:  5'- aGCGGCGGaGUCGCCuuugcGGaUCGCCGAc -3'
miRNA:   3'- gCGUUGCUcCAGUGGc----UCaAGCGGCU- -5'
30530 3' -55.3 NC_006548.1 + 17454 0.69 0.478394
Target:  5'- aGCGGCGAuGG-CGCCGcAGcUgGCCGAa -3'
miRNA:   3'- gCGUUGCU-CCaGUGGC-UCaAgCGGCU- -5'
30530 3' -55.3 NC_006548.1 + 27859 0.69 0.457991
Target:  5'- uGCAGCGcaguGGUgGCCGAGgcgaCGCCu- -3'
miRNA:   3'- gCGUUGCu---CCAgUGGCUCaa--GCGGcu -5'
30530 3' -55.3 NC_006548.1 + 13415 0.69 0.457991
Target:  5'- gGCGGCGggccAGGUCGCUGuuUgagCGCCGGc -3'
miRNA:   3'- gCGUUGC----UCCAGUGGCucAa--GCGGCU- -5'
30530 3' -55.3 NC_006548.1 + 6532 0.69 0.438062
Target:  5'- gGCAuCGAGGUCAUCGuGcacgCGCCa- -3'
miRNA:   3'- gCGUuGCUCCAGUGGCuCaa--GCGGcu -5'
30530 3' -55.3 NC_006548.1 + 20092 0.7 0.39051
Target:  5'- cCGC-ACcAGGUggUGCCgGAGUUCGCCGAg -3'
miRNA:   3'- -GCGuUGcUCCA--GUGG-CUCAAGCGGCU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.